Setting For Displaying

 A list of items of settings in track.
Item Description
BAM Height setting a height of regions in BAM.
Band Color setting a color of regions defined as Complex Rearrangements at ALT field in VCF.
Color
setting a color of regions in BAM. The kinds of color are listed below.

 ・ None specified:display all regions in single color
 ・ By read strand:display regions in each color depending on direction
 ・ By seq num:display regions in each color depending on read
Deletion Line setting a deletion color or form in BAM.
DEL Color setting a color of mutations defined as <DEL> at ALT field in VCF.
Display Mode
setting a display mode of regions. The display modes are listed below.

 ・ Pack:display that each region avoids being in a collision
 ・ Dense:display all regions at the same height
Feature Limit setting a threshold over which the track-view switches to the graph.
Filter switching visible / invisible depending on the type of the data.
Graph Color setting a color of graph.
Graph Type
setting a display style of the graph. The display styles are listed below.

 ・ Bar:display as bar chart
 ・ Point:display as scatter chart
INS Color setting a color of mutations defined as <INS> at ALT field in VCF.
INV Color setting a color of mutations defined as <INV> at ALT field in VCF.
Label setting labels displayed on regions when you load the track data.
Log Scale setting a graph scale at logarithm.
Min Width setting a width of the graph.
Pair Line setting a color or form of pair-information such as mate pair.
Plus/Minus Color setting colors of graph on direction of BAM.
Reference Color setting a color of reference base in VCF.
Select Use Sub Feature setting samples to be used in VCF.
Scale setting a graph scale. “Included Zero” means that scale always includes 0.
Show Plus/Minus setting enable / disable the color of graph depending on direction of BAM.
Sub Feature setting a color or form of sub features.
Sub Feature Label setting labels displayed on detail information of regions when you load the track data.
Top Feature setting a color or form of top features.
Track Height setting a height of track. “Auto” determines it automatically. “Manual” determines it manually.
Track Mode
setting a display mode of track. The display modes are listed below.

 ・ Stack: display first priority track
 ・ Side by Size:display all tracks
 ・ Display:display selected track
Window Function
setting the kind of value displayed in the graph. The kinds of value is listed below.

 ・ MAX:display with maximum value
 ・ MIN:display with minimum value
 ・ Average:display with average value
 ・ Round off:display all values in plot geometry